RetrogeneDB ID: | retro_ocun_897 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 16:46236782..46237865(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOCUG00000002503 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ASH2L | ||
| Ensembl ID: | ENSOCUG00000029521 | ||
| Aliases: | None | ||
| Description: | ash2 (absent, small, or homeotic)-like (Drosophila) [Source:HGNC Symbol;Acc:744] |
Retrocopy-Parental alignment summary:
>retro_ocun_897
CAGAGACCTGGGAAAATGACTTGGCCAAAAAACATTGTTAAAACCATTAGTAAAGAGAGAGATGTGTTTTTGGTAAAGGA
GCACCCTGATCCAGGGAGCAAAGACCCTGAAGATTACCCCAAATTTGGACTTCTGAATCAGGATCTTAGTAACATCGGTC
CTGCTTACAACAACCAGAAACAAAGCAGTGCTGTGTCTACCAGTGGGAATCTAAATGGGGGCATTGCAGCAGGGAGCAGT
GGAAAAGGAAGAGGAGCCAAGCACAAACAGCAGGATGGAGGGACCACGGGGACCACCAAGAAGGCCCGCAGTGACCCTTT
GTTTTCTGTTCAGCACCTTCCCCCTCATGGCTACCCCTTGGAGCATCCATTTAATAAAGATGGCTATCGGTATATTTTAG
CTGAGCCTGACCCCCATGCCCCTGACCCTGAGAAGCTCGAACTTGACTGTTGGGCAGGAAAATCTATCCCTGGAGACCTC
TACAGAGCCTGCTTGTACGAGCGAGTTTTGTTAGCCCTACATGATAGAGCTCCCCAGCTGAAGATCTTCAATGACCGGCT
GACTGTGGTTGGAGAGAAGGGCTACTCCATGGTGGGGGCCTCTCATGGGGTATGGAAAGGTGCCTGGTACTTTGAGATCA
CTGTGAATGAGATGCCACCCGACACTGCTGCCAGACTGGGTTGGTCTCAGCCCTTAGGCAACCTCCAAGCTCCCTTGGGC
TATGATAAATTCAGCTATCCTTGGCGGAGCAAAAAGGGAACCAAGTTCCATCAGTCCATTGGCAAACACTACTCCTCTGG
CTACGGACAGGGAGATGTCCTGGGATTCTACATCAACCTTCCTGAAGACACGGAGACAGGCAAGTCATTGCCTGACACAT
ACAAAGACAAGGCTTTGATCAAGTTCAAGAGTTATCTGTATTTTGAGGAGAAAGACTTCGTGGATAAAGCAGAGAAGTGC
CTAAAGCGGAGTCCCCATAGTGAGATAATATTTTATAAAAATGGTGCCAATCAAAGTGTGGCTTACAAAGATATTTTTGA
GGGGGTTTACTTCCCAGCCATCTCACTGTACAAAAGCTGCACA
ORF - retro_ocun_897 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.76 % |
| Parental protein coverage: | 97.87 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QRPGKMTWPNNIVKTMSKERDVFLVKEHPDPGSKDPEEDYPKFGLLDQDLSNIGPAYDNQKQSSAVSTSG |
| QRPGKMTWP.NIVKT.SKERDVFLVKEHPDPGSKDPE.DYPKFGLL.QDLSNIGPAY.NQKQSSAVSTSG | |
| Retrocopy | QRPGKMTWPKNIVKTISKERDVFLVKEHPDPGSKDPE-DYPKFGLLNQDLSNIGPAYNNQKQSSAVSTSG |
| Parental | NLNGGAILGGGIAAGSSGKGRGAKRKQQDGGTTGTTKKARSDPLFSAQRLPPHGYPLEHPFNKDGYRYIL |
| NLNGG...G........G.G..AK.KQQDGGTTGTTKKARSDPLFS.Q.LPPHGYPLEHPFNKDGYRYIL | |
| Retrocopy | NLNGGIAAG----SSGKGRG--AKHKQQDGGTTGTTKKARSDPLFSVQHLPPHGYPLEHPFNKDGYRYIL |
| Parental | AEPDPHAPDPEKLELDCWAGKPIPGDLYRACLYERVLLALHDRAPQLKISDDRLTVVGEKGYSMVRASHG |
| AEPDPHAPDPEKLELDCWAGK.IPGDLYRACLYERVLLALHDRAPQLKI..DRLTVVGEKGYSMV.ASHG | |
| Retrocopy | AEPDPHAPDPEKLELDCWAGKSIPGDLYRACLYERVLLALHDRAPQLKIFNDRLTVVGEKGYSMVGASHG |
| Parental | VRKGAWYFEITVDEMPPDTAARLGWSQPLGNLQAPLGYDKFSYSWRSKKGTKFHQSIGKHYSSGYGQGDV |
| V.KGAWYFEITV.EMPPDTAARLGWSQPLGNLQAPLGYDKFSY.WRSKKGTKFHQSIGKHYSSGYGQGDV | |
| Retrocopy | VWKGAWYFEITVNEMPPDTAARLGWSQPLGNLQAPLGYDKFSYPWRSKKGTKFHQSIGKHYSSGYGQGDV |
| Parental | LGFYINLPEDTETAKSLPDTYKDKALIKFKSYLYFEEKDFVDKAEKSLKQTPHSEIIFYKNGANQGVAYK |
| LGFYINLPEDTET.KSLPDTYKDKALIKFKSYLYFEEKDFVDKAEK.LK..PHSEIIFYKNGANQ.VAYK | |
| Retrocopy | LGFYINLPEDTETGKSLPDTYKDKALIKFKSYLYFEEKDFVDKAEKCLKRSPHSEIIFYKNGANQSVAYK |
| Parental | DIFEGVYFPAISLYKSCT |
| DIFEGVYFPAISLYKSCT | |
| Retrocopy | DIFEGVYFPAISLYKSCT |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 3 .04 RPM | 28 .75 RPM |
| SRP017611_kidney | 1 .93 RPM | 11 .96 RPM |
| SRP017611_liver | 0 .54 RPM | 4 .16 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_897 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_897 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_897 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000029521 | 2 retrocopies |
retro_ocun_872, retro_ocun_897 ,
|
| Sorex araneus | ENSSARG00000002606 | 1 retrocopy |